Locus 1793

Sequence ID 3R_DroMel_CAF1
Location 5,119,174 – 5,119,273
Length 99
Max. P 0.854302
window2955 window2956

overview

Window 5

Location 5,119,174 – 5,119,273
Length 99
Sequences 4
Columns 117
Reading direction forward
Mean pairwise identity 83.36
Mean single sequence MFE -32.75
Consensus MFE -20.86
Energy contribution -20.05
Covariance contribution -0.81
Combinations/Pair 1.19
Mean z-score -2.03
Structure conservation index 0.64
SVM decision value 0.49
SVM RNA-class probability 0.755427
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 5119174 99 + 27905053
UUUGCUCCAGUUUGUCAGAGCCACUUUGCUCCACUUGC------------------CCCAGUUGAGUUCCUUCGACUGAAGUGGCCCUUGAGCAAUGGGGCUCAUUAAUUCAGUUGU
...((((((..(((((((.(((((((.((.......))------------------..((((((((....)))))))))))))))..)))).)))))))))................ ( -31.70)
>DroSim_CAF1 21354 117 + 1
UUUGCUCCAGUUUGUCAGAGGCACUUUGCUCCAGUUGCUUCAGUUGCUCCAGUUGGCCCAGUUGAGUUCCUUCGGCUGAAGUGGCCCUUGAGCAAUGGGGCUCAUUAAUUCAGUUGU
...(((((.........((((((((.......)).)))))).(((((((.((..((((((((((((....))))))))....)))))).))))))))))))................ ( -39.50)
>DroEre_CAF1 22275 94 + 1
UUUGCUCCAGUUUGUCAGAGGCACUUUGCUCCAGUUGC------------------UC-----AAGUCCCUUCAGUUGAAGUGGCCCCUGAGCAAUGGGGCUCAUUAAUUCAGUUGU
...(((((.........(..((.....))..).(((((------------------((-----(.(((.((((....)))).)))...)))))))))))))................ ( -28.30)
>DroYak_CAF1 22452 94 + 1
UUUGCCCCAGUUUGUCAGAGGCACUUUGCUCCAGUUGC------------------UC-----AAGUUCCUUCGGUUGAAGUGGCCCUUGAGCAAUGGGGCUCAUUAAUUCAGUUGU
...(((((.........(..((.....))..).(((((------------------((-----(((.((((((....)))).))..)))))))))))))))................ ( -31.50)
>consensus
UUUGCUCCAGUUUGUCAGAGGCACUUUGCUCCAGUUGC__________________CC_____AAGUUCCUUCGGCUGAAGUGGCCCUUGAGCAAUGGGGCUCAUUAAUUCAGUUGU
.................((((.((((.((.......)).........................)))).))))((((((((((((((((........))))).)))...)))))))). (-20.86 = -20.05 +  -0.81)

alignment

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secondary structure

Postscript

dotplot

Postscript

Window 6

Location 5,119,174 – 5,119,273
Length 99
Sequences 4
Columns 117
Reading direction reverse
Mean pairwise identity 83.36
Mean single sequence MFE -30.75
Consensus MFE -18.38
Energy contribution -18.62
Covariance contribution 0.25
Combinations/Pair 1.00
Mean z-score -2.50
Structure conservation index 0.60
SVM decision value 0.80
SVM RNA-class probability 0.854302
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 5119174 99 - 27905053
ACAACUGAAUUAAUGAGCCCCAUUGCUCAAGGGCCACUUCAGUCGAAGGAACUCAACUGGG------------------GCAAGUGGAGCAAAGUGGCUCUGACAAACUGGAGCAAA
................((.((((((.(((.(((((((((...((....)).(((.(((...------------------...))).)))..)))))))))))))))..))).))... ( -29.70)
>DroSim_CAF1 21354 117 - 1
ACAACUGAAUUAAUGAGCCCCAUUGCUCAAGGGCCACUUCAGCCGAAGGAACUCAACUGGGCCAACUGGAGCAACUGAAGCAACUGGAGCAAAGUGCCUCUGACAAACUGGAGCAAA
................((.(((((((((...((((.((((....))))...(......))))).....))))))..((.(((.((.......))))).))........))).))... ( -28.70)
>DroEre_CAF1 22275 94 - 1
ACAACUGAAUUAAUGAGCCCCAUUGCUCAGGGGCCACUUCAACUGAAGGGACUU-----GA------------------GCAACUGGAGCAAAGUGCCUCUGACAAACUGGAGCAAA
................((.((((((((((((..((.((((....)))))).)))-----))------------------)))).))).))....(((.(((........)))))).. ( -31.30)
>DroYak_CAF1 22452 94 - 1
ACAACUGAAUUAAUGAGCCCCAUUGCUCAAGGGCCACUUCAACCGAAGGAACUU-----GA------------------GCAACUGGAGCAAAGUGCCUCUGACAAACUGGGGCAAA
................((.((((((((((((..((..(((....)))))..)))-----))------------------)))).))).))....((((((.........)))))).. ( -33.30)
>consensus
ACAACUGAAUUAAUGAGCCCCAUUGCUCAAGGGCCACUUCAACCGAAGGAACUC_____GA__________________GCAACUGGAGCAAAGUGCCUCUGACAAACUGGAGCAAA
................((.((((((.(((.(((((.((((....))))...............................((.......))...).)))).))))))..))).))... (-18.38 = -18.62 +   0.25)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:19:42 2006